NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0210408_10000001

Scaffold Ga0210408_10000001


Overview

Basic Information
Taxon OID3300021178 Open in IMG/M
Scaffold IDGa0210408_10000001 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-4-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)942161
Total Scaffold Genes878 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)707 (80.52%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001828Metagenome / Metatranscriptome629Y
F019366Metagenome / Metatranscriptome230Y
F025345Metagenome / Metatranscriptome202Y
F027575Metagenome / Metatranscriptome194Y
F032729Metagenome / Metatranscriptome179Y
F090654Metagenome / Metatranscriptome108N

Sequences

Protein IDFamilyRBSSequence
Ga0210408_10000001173F019366GGAGMFYGEKENKAISPRERELVVAYLSYALEDVRALSEAGSRFLQMTIATITEETTLDTPIQPLQSTSSH
Ga0210408_10000001256F025345AGGAMKQVNPSAFEPVRAGNALRTATIVIFATLALLAVTIPQSVVNWLNDMNGNPVQETALRGAQLLRNLSQRAGVAAVYQRARDIFIAISGAEPD
Ga0210408_10000001500F032729GAGMHGTLELTKRAAARRRSIKAGMIALAVLAGIVAGAVLVYTPLGDRVLTFLGFTDPQDCG
Ga0210408_10000001604F027575N/AVAALIAWMLVVRVDDFVKGLRPPKAAALRAALDEIINTNRMPSMRSRPLSRPF
Ga0210408_10000001701F001828GAGGMKLYAPNVALFVIAGCLAMLGVLAAFPIELPIPALTGNSAWYIFLAWFLLAAGSAIPHSDEHNSE
Ga0210408_10000001758F090654AGGAGGVKKLAIAFVCALIIPMLATAANARGRDKADFHYDGTTKCWVNDTHCKPPK
Ga0210408_10000001810F027575GAGMAALIAWLPVVRVDDLVKDGAKRRRLRRSTILDKIVNANKTLSMRSRPLSGPYIWAGGELQC
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